Greetings. Thanks for creating this software! I'm getting this error using the SweepGA aligner:
$ seqrush -v -t 64 --aligner sweepga -s all.fa --output-alignments pg.paf -o pg.gfa -k 0
Loaded 1857 sequences
Building graph with 1857 sequences (total length: 9356293360)
Using SweepGA aligner (FastGA + plane sweep filtering)
Running FastGA alignment on all.fa...
[FastGA] run_alignment: Aligning all.fa vs all.fa
[FastGA] Calling FastGA: /home/ubuntu/miniconda3/envs/py312/bin/FastGA -1:_tmp_148497.1aln -T64 -i0.00 all.fa all.fa (in dir: )
FastGA alignment failed: Failed to run FastGA alignment: Failed to run FastGA: No such file or directory (os error 2)
$ /home/ubuntu/miniconda3/envs/py312/bin/FastGA -1:_tmp_148497.1aln -T64 -i0.00 all.fa all.fa
FastGA: '-i' minimum alignment similarity must be in [0.55,1.0)
Greetings. Thanks for creating this software! I'm getting this error using the SweepGA aligner: